Files in Linlab-slu/TSSr
TSS sequencing data analysis

.Rbuildignore
.gitignore
DESCRIPTION
LICENSE
NAMESPACE
R/Aclasses.R R/AnnotationFunctions.R R/AnnotationMethods.R R/ClusteringFunctions.R R/ClusteringMethods.R R/ConsensusFunctions.R R/ConsensusMethods.R R/ExportFunctions.R R/ExportMethods.R R/ExpressionFunctions.R R/ExpressionMethods.R R/FilteringFunctions.R R/FilteringMethods.R R/ImportFunctions.R R/ImportMethods.R R/MergingMethods.R R/NormalizationMethods.R R/ShapeMethods.R R/ShiftingFunctions.R R/ShiftingMethods.R R/TSSr.R R/example.R README.md
TSSr.Rproj
_pkgdown.yml
data/example TSS table
data/exampleTSSr.RData
doc/vignette.R doc/vignette.Rmd
doc/vignette.html
docs/404.html
docs/LICENSE-text.html
docs/articles/figures/01_TSS_correlation_plot_of_all_samples.png
docs/articles/figures/02_PCA_plot.png
docs/articles/figures/03_Interquantile_plot_of_ALL_samples.png
docs/articles/figures/04_Shape_plot_of_ALL_samples.png
docs/articles/figures/05_Volcano_plot.png
docs/articles/figures/06_TSS_graphs.png
docs/articles/index.html
docs/articles/vignette.html
docs/authors.html
docs/bootstrap-toc.css
docs/bootstrap-toc.js
docs/docsearch.css
docs/docsearch.js
docs/index.html
docs/link.svg
docs/pkgdown.css
docs/pkgdown.js
docs/pkgdown.yml
docs/reference/ALL.samples.TSS.raw.txt
docs/reference/Interquantile_plot_of_ALL_samples.pdf docs/reference/PCA_plot.pdf docs/reference/Shape_plot_of_ALL_samples.pdf docs/reference/TSS_correlation_plot_of_all_samples.pdf
docs/reference/TSSr-class.html
docs/reference/TSSr-package.html
docs/reference/Volcano_plot.pdf
docs/reference/annotateCluster.html
docs/reference/clusterTSS.html
docs/reference/consensusCluster.html
docs/reference/control.TSS.processed.minus.bedGraph
docs/reference/control.TSS.processed.plus.bedGraph
docs/reference/control.assignedClusters.txt
docs/reference/control.consensusClusters.txt
docs/reference/control.filteredClusters.txt
docs/reference/control.promoter.shape.txt
docs/reference/control.tagClusters.txt
docs/reference/control.unassignedClusters.txt
docs/reference/control_VS_treat.DE.table.sig.txt
docs/reference/control_VS_treat.promoter.shift.table.txt
docs/reference/deGene.html
docs/reference/exampleTSSr.html
docs/reference/exportClustersTable.html
docs/reference/exportClustersToBed.html
docs/reference/exportDETable.html
docs/reference/exportShapeTable.html
docs/reference/exportShiftTable.html
docs/reference/exportTSStable.html
docs/reference/exportTSStoBedgraph.html
docs/reference/filterTSS.html
docs/reference/getTSS.html
docs/reference/index.html
docs/reference/mergeSamples.html
docs/reference/normalizeTSS.html
docs/reference/plotCorrelation.html
docs/reference/plotDE.html
docs/reference/plotInterQuantile.html
docs/reference/plotShape.html
docs/reference/plotTSS.html
docs/reference/plotTssPCA.html
docs/reference/shapeCluster.html
docs/reference/shiftPromoter.html
docs/reference/treat.TSS.processed.minus.bedGraph
docs/reference/treat.TSS.processed.plus.bedGraph
docs/reference/treat.assignedClusters.txt
docs/reference/treat.consensusClusters.txt
docs/reference/treat.filteredClusters.txt
docs/reference/treat.promoter.shape.txt
docs/reference/treat.tagClusters.txt
docs/reference/treat.unassignedClusters.txt
man/.Rapp.history
man/TSSr-class.Rd man/TSSr-package.Rd man/annotateCluster.Rd man/clusterTSS.Rd man/consensusCluster.Rd man/deGene.Rd man/exampleTSSr.Rd man/exportClustersTable.Rd man/exportClustersToBed.Rd man/exportDETable.Rd man/exportShapeTable.Rd man/exportShiftTable.Rd man/exportTSStable.Rd man/exportTSStoBedgraph.Rd man/filterTSS.Rd man/getTSS.Rd man/mergeSamples.Rd man/normalizeTSS.Rd man/plotCorrelation.Rd man/plotDE.Rd man/plotInterQuantile.Rd man/plotShape.Rd man/plotTSS.Rd man/plotTssPCA.Rd man/shapeCluster.Rd man/shiftPromoter.Rd
vignettes/figures/01_TSS_correlation_plot_of_all_samples.png
vignettes/figures/02_PCA_plot.png
vignettes/figures/03_Interquantile_plot_of_ALL_samples.png
vignettes/figures/04_Shape_plot_of_ALL_samples.png
vignettes/figures/05_Volcano_plot.png
vignettes/figures/06_TSS_graphs.png
vignettes/vignette.Rmd
Linlab-slu/TSSr documentation built on July 28, 2021, 12:59 a.m.